المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/journal_contribution/Technical_details_of_i_SurfinFBA_i_/24555500

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.s002
https://figshare.com/articles/journal_contribution/Technical_details_of_i_SurfinFBA_i_/24555500

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/figure/The_10_taxa_isolated_from_soil_samples_all_grow_to_stationary_phase_at_varying_rates_/24555506

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.g002
https://figshare.com/articles/figure/The_10_taxa_isolated_from_soil_samples_all_grow_to_stationary_phase_at_varying_rates_/24555506

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/figure/Fig_1_-/24555503

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.g001
https://figshare.com/articles/figure/Fig_1_-/24555503

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/dataset/Details_of_soil_isolate_sequencing_experiments_/24555497

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.s001
https://figshare.com/articles/dataset/Details_of_soil_isolate_sequencing_experiments_/24555497

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/figure/A_community_of_10_taxa_detailed_in_Table_2_from_soil_and_modeled_using_ModelSEED_behaves_according_to_a_series_of_3_interaction_networks_/24555509

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.g003
https://figshare.com/articles/figure/A_community_of_10_taxa_detailed_in_Table_2_from_soil_and_modeled_using_ModelSEED_behaves_according_to_a_series_of_3_interaction_networks_/24555509

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/figure/The_model_of_genome_i_bc1001_i_shows_varying_connections_to_the_set_of_environmental_metabolites_when_simulated_in_different_isolated_sub-communities_/24555518

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.g006
https://figshare.com/articles/figure/The_model_of_genome_i_bc1001_i_shows_varying_connections_to_the_set_of_environmental_metabolites_when_simulated_in_different_isolated_sub-communities_/24555518

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/figure/DFBA_simulations_often_failed_to_identify_which_of_a_pair_would_have_higher_abundance_at_any_of_the_three_experimental_time-points_/24555521

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.g007
https://figshare.com/articles/figure/DFBA_simulations_often_failed_to_identify_which_of_a_pair_would_have_higher_abundance_at_any_of_the_three_experimental_time-points_/24555521

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/figure/MetConSIN_can_infer_the_metabolic_activity_of_the_10_member_community_detailed_in_Table_2_as_represented_by_the_emergent_interactions_between_metabolites_due_to_microbial_metabolisms_/24555512

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.g004
https://figshare.com/articles/figure/MetConSIN_can_infer_the_metabolic_activity_of_the_10_member_community_detailed_in_Table_2_as_represented_by_the_emergent_interactions_between_metabolites_due_to_microbial_metabolisms_/24555512

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/figure/MetConSIN_is_able_to_suggest_candidate_metabolites_which_mediate_the_significant_interactions_observed_in_growth_experiments_performed_by_Weiss_et_al_/24555524

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.g008
https://figshare.com/articles/figure/MetConSIN_is_able_to_suggest_candidate_metabolites_which_mediate_the_significant_interactions_observed_in_growth_experiments_performed_by_Weiss_et_al_/24555524

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/figure/Fig_5_-/24555515

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.g005
https://figshare.com/articles/figure/Fig_5_-/24555515

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/figure/Networks_constructed_directly_from_the_solution_to_FBA_at_a_time_point_in_simulation_show_some_difference_in_edge_weight_edges_shared_with_MetConSIN_networks_constructed_for_the_corresponding_time_interval_as_well_as_a_small_number_of_edges/24555527

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.g009
https://figshare.com/articles/figure/Networks_constructed_directly_from_the_solution_to_FBA_at_a_time_point_in_simulation_show_some_difference_in_edge_weight_edges_shared_with_MetConSIN_networks_constructed_for_the_corresponding_time_interval_as_well_as_a_small_number_of_edges/24555527

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/dataset/The_10_bacterial_genomes_that_were_used_to_demonstrate_the_method_were_isolated_from_soil_samples_and_sequenced_with_PacBio_/24555536

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.t002
https://figshare.com/articles/dataset/The_10_bacterial_genomes_that_were_used_to_demonstrate_the_method_were_isolated_from_soil_samples_and_sequenced_with_PacBio_/24555536

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/dataset/Mapping_of_terms_in_Eqs_10_and_11_to_network_edges_/24555533

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.t001
https://figshare.com/articles/dataset/Mapping_of_terms_in_Eqs_10_and_11_to_network_edges_/24555533

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/dataset/MetConSIN_species-species_networks_are_based_on_shared_interactions_with_the_set_of_metabolites_and_indicate_which_rate-limiting_metabolites_lead_to_an_interaction_/24555539

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.t003
https://figshare.com/articles/dataset/MetConSIN_species-species_networks_are_based_on_shared_interactions_with_the_set_of_metabolites_and_indicate_which_rate-limiting_metabolites_lead_to_an_interaction_/24555539

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/figure/Simulating_with_i_SurfinFBA_i_our_simulation_algorithm_that_is_included_in_MetConSIN_was_about_10_times_faster_than_simulating_using_a_direct_method_/24555530

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.g010
https://figshare.com/articles/figure/Simulating_with_i_SurfinFBA_i_our_simulation_algorithm_that_is_included_in_MetConSIN_was_about_10_times_faster_than_simulating_using_a_direct_method_/24555530

المؤلفون: James D. Brunner, Laverne A. Gallegos-Graves, Marie E. Kroeger

مصطلحات موضوعية: Microbiology, Genetics, Ecology, Computational Biology, Astronomical and Space Sciences not elsewhere classified, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, techniques rely heavily, soil carbon storage, robust qualitative analysis, resulting metabolic impact, impact human health, metabolically contextualized <, scale metabolic models, simulating microbial communities, inferred microbial dynamics, metabolite interactions within, n , met , con , scale modeling techniques, translate genomic data, previously developed algorithm, available environmental metabolites, inferring microbial interactions, , scale modeling, environmental metabolites, microbial community, microbial activity

Relation: https://figshare.com/articles/dataset/Species-species_networks_constructed_from_FBA_cannot_identify_which_metabolites_lead_to_the_interaction_and_instead_simply_list_all_shared_metabolites_/24555542

الاتاحة: https://doi.org/10.1371/journal.pcbi.1011661.t004
https://figshare.com/articles/dataset/Species-species_networks_constructed_from_FBA_cannot_identify_which_metabolites_lead_to_the_interaction_and_instead_simply_list_all_shared_metabolites_/24555542

المؤلفون: Markus D. Müller, Poonam Sharma, J Thomas Poiger, Vishakha Raina, Hans Rudolf Buser, Daniel Rentsch, Andrea Hauser, Hans-Peter E. Kohler, Christof Holliger, Rup Lal

المصدر: Environmental Science & Technology. 41:4292-4298

مصطلحات موضوعية: spectroscopy, Magnetic Resonance Spectroscopy, Metabolite, Hexachlorocyclohexane, soil microorganism, Hydroxylation, biodegradation, Gas Chromatography-Mass Spectrometry, chemistry.chemical_compound, Bioremediation, bioremediation, Environmental Chemistry, hexachlorocyclohexane (HCH), haloalkane dehalogenase LinB, environmental metabolites, Water, Stereoisomerism, General Chemistry, Nuclear magnetic resonance spectroscopy, Pesticide, Cyclohexanols, Soil contamination, Sphingomonadaceae, nuclear magnetic resonance, Metabolic pathway, chemistry, Environmental chemistry, Water Pollutants, Chemical, Sphingobium indicum

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::05d042af88fd82df06468f960f61d31d
https://doi.org/10.1021/es062908g